当前位置： SCI文献检索 > Nature Communications期刊下所有文献 > Clonal replacement and heterogeneity in breast tumors treated with neoadjuvant HER2-targeted therapy.

Clonal replacement and heterogeneity in breast tumors treated with neoadjuvant HER2-targeted therapy.

Abstract：

:Genomic changes observed across treatment may result from either clonal evolution or geographically disparate sampling of heterogeneous tumors. Here we use computational modeling based on analysis of fifteen primary breast tumors and find that apparent clonal change between two tumor samples can frequently be explained by pre-treatment heterogeneity, such that at least two regions are necessary to detect treatment-induced clonal shifts. To assess for clonal replacement, we devise a summary statistic based on whole-exome sequencing of a pre-treatment biopsy and multi-region sampling of the post-treatment surgical specimen and apply this measure to five breast tumors treated with neoadjuvant HER2-targeted therapy. Two tumors underwent clonal replacement with treatment, and mathematical modeling indicates these two tumors had resistant subclones prior to treatment and rates of resistance-related genomic changes that were substantially larger than previous estimates. Our results provide a needed framework to incorporate primary tumor heterogeneity in investigating the evolution of resistance.

journal_name

Nat Commun

journal_title

Nature communications

authors

Caswell-Jin JL,McNamara K,Reiter JG,Sun R,Hu Z,Ma Z,Ding J,Suarez CJ,Tilk S,Raghavendra A,Forte V,Chin SF,Bardwell H,Provenzano E,Caldas C,Lang J,West R,Tripathy D,Press MF,Curtis C

doi

10.1038/s41467-019-08593-4

subject

Has Abstract

pub_date

2019-02-08 00:00:00

pages

657

issue

1

issn

2041-1723

pii

10.1038/s41467-019-08593-4

journal_volume

10

pub_type

杂志文章

相关文献

Nature Communications文献大全
  • Edge stabilization in reduced-dimensional perovskites.

    abstract：:Reduced-dimensional perovskites are attractive light-emitting materials due to their efficient luminescence, color purity, tunable bandgap, and structural diversity. A major limitation in perovskite light-emitting diodes is their limited operational stability. Here we demonstrate that rapid photodegradation arises fro...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-13944-2

    authors： Na Quan L,Ma D,Zhao Y,Voznyy O,Yuan H,Bladt E,Pan J,García de Arquer FP,Sabatini R,Piontkowski Z,Emwas AH,Todorović P,Quintero-Bermudez R,Walters G,Fan JZ,Liu M,Tan H,Saidaminov MI,Gao L,Li Y,Anjum DH,Wei N,Ta

    更新日期：2020-01-10 00:00:00

  • Structure of transcribing RNA polymerase II-nucleosome complex.

    abstract：:Transcription of eukaryotic protein-coding genes requires passage of RNA polymerase II (Pol II) through nucleosomes, but it is unclear how this is achieved. Here we report the cryo-EM structure of transcribing Saccharomyces cerevisiae Pol II engaged with a downstream nucleosome core particle at an overall resolution o...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-07870-y

    authors： Farnung L,Vos SM,Cramer P

    更新日期：2018-12-21 00:00:00

  • Endothelial protein kinase MAP4K4 promotes vascular inflammation and atherosclerosis.

    abstract：:Signalling pathways that control endothelial cell (EC) permeability, leukocyte adhesion and inflammation are pivotal for atherosclerosis initiation and progression. Here we demonstrate that the Sterile-20-like mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4), which has been implicated in inflammation, ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms9995

    authors： Roth Flach RJ,Skoura A,Matevossian A,Danai LV,Zheng W,Cortes C,Bhattacharya SK,Aouadi M,Hagan N,Yawe JC,Vangala P,Menendez LG,Cooper MP,Fitzgibbons TP,Buckbinder L,Czech MP

    更新日期：2015-12-21 00:00:00

  • Nanoscale membranes that chemically isolate and electronically wire up the abiotic/biotic interface.

    abstract：:By electrochemically coupling microbial and abiotic catalysts, bioelectrochemical systems such as microbial electrolysis cells and microbial electrosynthesis systems synthesize energy-rich chemicals from energy-poor precursors with unmatched efficiency. However, to circumvent chemical incompatibilities between the mic...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-04707-6

    authors： Cornejo JA,Sheng H,Edri E,M Ajo-Franklin C,Frei H

    更新日期：2018-06-11 00:00:00

  • A Pseudomonas T6SS effector recruits PQS-containing outer membrane vesicles for iron acquisition.

    abstract：:Iron sequestration by host proteins contributes to the defence against bacterial pathogens, which need iron for their metabolism and virulence. A Pseudomonas aeruginosa mutant lacking all three known iron acquisition systems retains the ability to grow in media containing iron chelators, suggesting the presence of add...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms14888

    authors： Lin J,Zhang W,Cheng J,Yang X,Zhu K,Wang Y,Wei G,Qian PY,Luo ZQ,Shen X

    更新日期：2017-03-28 00:00:00

  • Controllable fatigue cracking mechanisms of copper bicrystals with a coherent twin boundary.

    abstract：:High-angle grain boundaries are always the preferential fatigue cracking sites, while the intrinsic fatigue cracking mechanism of coherent twin boundary remains elusive. Here we systematically investigate the fatigue cracking behaviours of copper bicrystals with a coherent twin boundary as their sole internal boundary...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms4536

    authors： Li LL,Zhang ZJ,Zhang P,Wang ZG,Zhang ZF

    更新日期：2014-03-26 00:00:00

  • Molecular basis for the specific and multivariant recognitions of RNA substrates by human hnRNP A2/B1.

    abstract：:Human hnRNP A2/B1 is an RNA-binding protein that plays important roles in many biological processes, including maturation, transport, and metabolism of mRNA, and gene regulation of long noncoding RNAs. hnRNP A2/B1 was reported to control the microRNAs sorting to exosomes and promote primary microRNA processing as a po...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-02770-z

    authors： Wu B,Su S,Patil DP,Liu H,Gan J,Jaffrey SR,Ma J

    更新日期：2018-01-29 00:00:00

  • The reach of gene-culture coevolution in animals.

    abstract：:Culture (behaviour based on socially transmitted information) is present in diverse animal species, yet how it interacts with genetic evolution remains largely unexplored. Here, we review the evidence for gene-culture coevolution in animals, especially birds, cetaceans and primates. We describe how culture can relax o...

    journal_title：Nature communications

    pub_type： 杂志文章,评审

    doi：10.1038/s41467-019-10293-y

    authors： Whitehead H,Laland KN,Rendell L,Thorogood R,Whiten A

    更新日期：2019-06-03 00:00:00

  • A network of RNA-binding proteins controls translation efficiency to activate anaerobic metabolism.

    abstract：:Protein expression evolves under greater evolutionary constraint than mRNA levels, and translation efficiency represents a primary determinant of protein levels during stimuli adaptation. This raises the question as to the translatome remodelers that titrate protein output from mRNA populations. Here, we uncover a net...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-16504-1

    authors： Ho JJD,Balukoff NC,Theodoridis PR,Wang M,Krieger JR,Schatz JH,Lee S

    更新日期：2020-05-29 00:00:00

  • Product selectivity in plasmonic photocatalysis for carbon dioxide hydrogenation.

    abstract：:Photocatalysis has not found widespread industrial adoption, in spite of decades of active research, because the challenges associated with catalyst illumination and turnover outweigh the touted advantages of replacing heat with light. A demonstration that light can control product selectivity in complex chemical reac...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms14542

    authors： Zhang X,Li X,Zhang D,Su NQ,Yang W,Everitt HO,Liu J

    更新日期：2017-02-23 00:00:00

  • Steroidal and non-steroidal third-generation aromatase inhibitors induce pain-like symptoms via TRPA1.

    abstract：:Use of aromatase inhibitors (AIs), exemestane, letrozole and anastrozole, for breast cancer therapy is associated with severe pain symptoms, the underlying mechanism of which is unknown. The electrophilic nature of AIs suggests that they may target the transient receptor potential ankyrin 1 (TRPA1) channel, a major pa...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms6736

    authors： Fusi C,Materazzi S,Benemei S,Coppi E,Trevisan G,Marone IM,Minocci D,De Logu F,Tuccinardi T,Di Tommaso MR,Susini T,Moneti G,Pieraccini G,Geppetti P,Nassini R

    更新日期：2014-12-08 00:00:00

  • Partially coherent ultrafast spectrography.

    abstract：:Modern ultrafast metrology relies on the postulate that the pulse to be measured is fully coherent, that is, that it can be completely described by its spectrum and spectral phase. However, synthesizing fully coherent pulses is not always possible in practice, especially in the domain of emerging ultrashort X-ray sour...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms7465

    authors： Bourassin-Bouchet C,Couprie ME

    更新日期：2015-03-06 00:00:00

  • Power laws in pressure-induced structural change of glasses.

    abstract：:Many glasses exhibit fractional power law (FPL) between the mean atomic volume va and the first diffraction peak position q1, i.e. [Formula: see text] with d ≃ 2.5 deviating from the space dimension D = 3, under compression or composition change. What structural change causes such FPL and whether the FPL and d are uni...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-15583-4

    authors： Zhang H,Qiao K,Han Y

    更新日期：2020-04-24 00:00:00

  • Optical patterning of trapped charge in nitrogen-doped diamond.

    abstract：:The nitrogen-vacancy (NV) centre in diamond is emerging as a promising platform for solid-state quantum information processing and nanoscale metrology. Of interest in these applications is the manipulation of the NV charge, which can be attained by optical excitation. Here, we use two-colour optical microscopy to inve...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms12660

    authors： Jayakumar H,Henshaw J,Dhomkar S,Pagliero D,Laraoui A,Manson NB,Albu R,Doherty MW,Meriles CA

    更新日期：2016-08-30 00:00:00

  • Role of syn-eruptive plagioclase disequilibrium crystallization in basaltic magma ascent dynamics.

    abstract：:Timescales of magma ascent in conduit models are typically assumed to be much longer than crystallization and gas exsolution for basaltic eruptions. However, it is now recognized that basaltic magmas may rise fast enough for disequilibrium processes to play a key role on the ascent dynamics. The quantification of the ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms13402

    authors： La Spina G,Burton M,De' Michieli Vitturi M,Arzilli F

    更新日期：2016-12-12 00:00:00

  • Large bipolaron density at organic semiconductor/electrode interfaces.

    abstract：:Bipolaron states, in which two electrons or two holes occupy a single molecule or conjugated polymer segment, are typically considered to be negligible in organic semiconductor devices due to Coulomb repulsion between the two charges. Here we use charge modulation spectroscopy to reveal a bipolaron sheet density >1010...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-02459-3

    authors： Dhanker R,Gray CL,Mukhopadhyay S,Nunez S,Cheng CY,Sokolov AN,Giebink NC

    更新日期：2017-12-21 00:00:00

  • Herbivorous turtle ants obtain essential nutrients from a conserved nitrogen-recycling gut microbiome.

    abstract：:Nitrogen acquisition is a major challenge for herbivorous animals, and the repeated origins of herbivory across the ants have raised expectations that nutritional symbionts have shaped their diversification. Direct evidence for N provisioning by internally housed symbionts is rare in animals; among the ants, it has be...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-03357-y

    authors： Hu Y,Sanders JG,Łukasik P,D'Amelio CL,Millar JS,Vann DR,Lan Y,Newton JA,Schotanus M,Kronauer DJC,Pierce NE,Moreau CS,Wertz JT,Engel P,Russell JA

    更新日期：2018-03-06 00:00:00

  • TET2 directs mammary luminal cell differentiation and endocrine response.

    abstract：:Epigenetic regulation plays an important role in governing stem cell fate and tumorigenesis. Lost expression of a key DNA demethylation enzyme TET2 is associated with human cancers and has been linked to stem cell traits in vitro; however, whether and how TET2 regulates mammary stem cell fate and mammary tumorigenesis...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-18129-w

    authors： Kim MR,Wu MJ,Zhang Y,Yang JY,Chang CJ

    更新日期：2020-09-15 00:00:00

  • Electrically tunable optical polarization rotation on a silicon chip using Berry's phase.

    abstract：:The continued convergence of electronics and photonics on the chip scale can benefit from the voltage control of optical polarization for applications in communications, signal processing and sensing. It is challenging, however, to electrically manipulate the polarization state of light in planar optical waveguides. H...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms6337

    authors： Xu Q,Chen L,Wood MG,Sun P,Reano RM

    更新日期：2014-11-12 00:00:00

  • XPC deficiency increases risk of hematologic malignancies through mutator phenotype and characteristic mutational signature.

    abstract：:Recent studies demonstrated a dramatically increased risk of leukemia in patients with a rare genetic disorder, Xeroderma Pigmentosum group C (XP-C), characterized by constitutive deficiency of global genome nucleotide excision repair (GG-NER). The genetic mechanisms of non-skin cancers in XP-C patients remain unexplo...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-19633-9

    authors： Yurchenko AA,Padioleau I,Matkarimov BT,Soulier J,Sarasin A,Nikolaev S

    更新日期：2020-11-17 00:00:00

  • Publisher Correction: An engineered human Fc domain that behaves like a pH-toggle switch for ultra-long circulation persistence.

    abstract：:An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title：Nature communications

    pub_type： 已发布勘误

    doi：10.1038/s41467-019-13458-x

    authors： Lee CH,Kang TH,Godon O,Watanabe M,Delidakis G,Gillis CM,Sterlin D,Hardy D,Cogné M,Macdonald LE,Murphy AJ,Tu N,Lee J,McDaniel JR,Makowski E,Tessier PM,Meyer AS,Bruhns P,Georgiou G

    更新日期：2019-11-26 00:00:00

  • Confinement-deconfinement transition due to spontaneous symmetry breaking in quantum Hall bilayers.

    abstract：:Band-inverted electron-hole bilayers support quantum spin Hall insulator and exciton condensate phases. Interest in quantum spin Hall effect in these systems has recently put them in the spotlight. We investigate such a bilayer in an external magnetic field. We show that the interlayer correlations lead to formation o...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms10462

    authors： Pikulin DI,Silvestrov PG,Hyart T

    更新日期：2016-01-25 00:00:00

  • Evidence for ACTN3 as a genetic modifier of Duchenne muscular dystrophy.

    abstract：:Duchenne muscular dystrophy (DMD) is characterized by muscle degeneration and progressive weakness. There is considerable inter-patient variability in disease onset and progression, which can confound the results of clinical trials. Here we show that a common null polymorphism (R577X) in ACTN3 results in significantly...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms14143

    authors： Hogarth MW,Houweling PJ,Thomas KC,Gordish-Dressman H,Bello L,Cooperative International Neuromuscular Research Group (CINRG).,Pegoraro E,Hoffman EP,Head SI,North KN

    更新日期：2017-01-31 00:00:00

  • Clonal dynamics following p53 loss of heterozygosity in Kras-driven cancers.

    abstract：:Although it has become increasingly clear that cancers display extensive cellular heterogeneity, the spatial growth dynamics of genetically distinct clones within developing solid tumours remain poorly understood. Here we leverage mosaic analysis with double markers (MADM) to trace subclonal populations retaining or l...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms12685

    authors： Muzumdar MD,Dorans KJ,Chung KM,Robbins R,Tammela T,Gocheva V,Li CM,Jacks T

    更新日期：2016-09-02 00:00:00

  • Light microscopy based approach for mapping connectivity with molecular specificity.

    abstract：:Mapping neuroanatomy is a foundational goal towards understanding brain function. Electron microscopy (EM) has been the gold standard for connectivity analysis because nanoscale resolution is necessary to unambiguously resolve synapses. However, molecular information that specifies cell types is often lost in EM recon...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-18422-8

    authors： Shen FY,Harrington MM,Walker LA,Cheng HPJ,Boyden ES,Cai D

    更新日期：2020-09-15 00:00:00

  • Membrane tension controls the assembly of curvature-generating proteins.

    abstract：:Proteins containing a Bin/Amphiphysin/Rvs (BAR) domain regulate membrane curvature in the cell. Recent simulations have revealed that BAR proteins assemble into linear aggregates, strongly affecting membrane curvature and its in-plane stress profile. Here, we explore the opposite question: do mechanical properties of ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms8219

    authors： Simunovic M,Voth GA

    更新日期：2015-05-26 00:00:00

  • Demonstration of a positron beam-driven hollow channel plasma wakefield accelerator.

    abstract：:Plasma wakefield accelerators have been used to accelerate electron and positron particle beams with gradients that are orders of magnitude larger than those achieved in conventional accelerators. In addition to being accelerated by the plasma wakefield, the beam particles also experience strong transverse forces that...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms11785

    authors： Gessner S,Adli E,Allen JM,An W,Clarke CI,Clayton CE,Corde S,Delahaye JP,Frederico J,Green SZ,Hast C,Hogan MJ,Joshi C,Lindstrøm CA,Lipkowitz N,Litos M,Lu W,Marsh KA,Mori WB,O'Shea B,Vafaei-Najafabadi N,Walz D,Y

    更新日期：2016-06-02 00:00:00

  • Graphene-ferroelectric metadevices for nonvolatile memory and reconfigurable logic-gate operations.

    abstract：:Memory metamaterials are artificial media that sustain transformed electromagnetic properties without persistent external stimuli. Previous memory metamaterials were realized with phase-change materials, such as vanadium dioxide or chalcogenide glasses, which exhibit memory behaviour with respect to electrically/optic...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms10429

    authors： Kim WY,Kim HD,Kim TT,Park HS,Lee K,Choi HJ,Lee SH,Son J,Park N,Min B

    更新日期：2016-01-27 00:00:00

  • Peritoneal tissue-resident macrophages are metabolically poised to engage microbes using tissue-niche fuels.

    abstract：:The importance of metabolism in macrophage function has been reported, but the in vivo relevance of the in vitro observations is still unclear. Here we show that macrophage metabolites are defined in a specific tissue context, and these metabolites are crucially linked to tissue-resident macrophage functions. We find ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-02092-0

    authors： Davies LC,Rice CM,Palmieri EM,Taylor PR,Kuhns DB,McVicar DW

    更新日期：2017-12-12 00:00:00

  • Real-time assembly of ribonucleoprotein complexes on nascent RNA transcripts.

    abstract：:Cellular protein-RNA complexes assemble on nascent transcripts, but methods to observe transcription and protein binding in real time and at physiological concentrations are not available. Here, we report a single-molecule approach based on zero-mode waveguides that simultaneously tracks transcription progress and the...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-07423-3

    authors： Duss O,Stepanyuk GA,Grot A,O'Leary SE,Puglisi JD,Williamson JR

    更新日期：2018-11-30 00:00:00